GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argB in Herbaspirillum seropedicae SmR1

Align acetylglutamate kinase (EC 2.7.2.8) (characterized)
to candidate HSERO_RS21495 HSERO_RS21495 acetylglutamate kinase

Query= BRENDA::Q9HTN2
         (301 letters)



>FitnessBrowser__HerbieS:HSERO_RS21495
          Length = 297

 Score =  335 bits (860), Expect = 6e-97
 Identities = 164/285 (57%), Positives = 218/285 (76%), Gaps = 5/285 (1%)

Query: 12  AKVLSEALPYIRRFVGKTLVIKYGGNAMESEELKAGFARDVVLMKAVGINPVVVHGGGPQ 71
           A++L+EALPYIR+F GKT+V+KYGGNAM  E LK GFARDV+L+K VG+NPVVVHGGGPQ
Sbjct: 14  AEILAEALPYIRKFHGKTIVVKYGGNAMTEESLKHGFARDVILLKLVGMNPVVVHGGGPQ 73

Query: 72  IGDLLKRLSIESHFIDGMRVTDAATMDVVEMVLGGQVNKDIVNLINRHGGSAIGLTGKDA 131
           I   LK++  +  F+ GMR+TD  TM+VVE VLGG+V +DIV LIN +GG A+GLTGKD 
Sbjct: 74  IDAALKKIGKQGTFVQGMRITDEETMEVVEWVLGGEVQQDIVMLINHYGGQAVGLTGKDG 133

Query: 132 ELIRAKKLTVTRQTPEMTKP-EIIDIGHVGEVTGVNVGLLNMLVKGDFIPVIAPIGVGSN 190
            LIRA+K+    Q P+   P   +DIG+VGE+  +N  ++  L    FIP+I+PIG G +
Sbjct: 134 GLIRARKM----QMPDKEHPGAFLDIGYVGEIEAINPAVVKALQDDAFIPIISPIGFGDD 189

Query: 191 GESYNINADLVAGKVAEALKAEKLMLLTNIAGLMDKQGQVLTGLSTEQVNELIADGTIYG 250
           G++YNINAD+VAGK+AE L AEKL+++TNIAG+ DK G +LT LS  +++E+ ADGTI G
Sbjct: 190 GQAYNINADVVAGKIAEILHAEKLIMMTNIAGVQDKAGNLLTDLSAREIDEMFADGTISG 249

Query: 251 GMLPKIRCALEAVQGGVTSAHIIDGRVPNAVLLEIFTDSGVGTLI 295
           GMLPKI  AL+A + GV + HIIDGR+ +++LLE+ T+   GT+I
Sbjct: 250 GMLPKISSALDAAKSGVNTVHIIDGRIEHSLLLEVLTEQAFGTMI 294


Lambda     K      H
   0.318    0.138    0.381 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 338
Number of extensions: 11
Number of successful extensions: 2
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 301
Length of database: 297
Length adjustment: 27
Effective length of query: 274
Effective length of database: 270
Effective search space:    73980
Effective search space used:    73980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)

Align candidate HSERO_RS21495 HSERO_RS21495 (acetylglutamate kinase)
to HMM TIGR00761 (argB: acetylglutamate kinase (EC 2.7.2.8))

Software error:

../bin/blast/fastacmd -i /tmp/list.17032.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.17032.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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